HsaEX0057168 @ hg19
Exon Skipping
Gene
ENSG00000143434 | SEMA6C
Description
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6C [Source:HGNC Symbol;Acc:10740]
Coordinates
chr1:151110187-151110882:-
Coord C1 exon
chr1:151110792-151110882
Coord A exon
chr1:151110462-151110581
Coord C2 exon
chr1:151110187-151110275
Length
120 bp
Sequences
Splice sites
3' ss Seq
CACTCCACCCATCCCTCCAGAGG
3' ss Score
6.7
5' ss Seq
GAGGTCAGG
5' ss Score
4.94
Exon sequences
Seq C1 exon
ATAACTTCGCTGCAGCAGGAGGGTGAGGAACTGAGTGGGCAGGCTCGATGCCCCTTTGATGCCACCCAGTCCAACGTGGCCATCTTTGCAG
Seq A exon
AGGGCAGCCTGTACTCAGCCACAGCTGCGGATTTCCAGGCCAGTGATGCTGTAGTTTACAGAAGCCTTGGGCCCCAGCCCCCACTCCGCTCCGCCAAGTATGACTCCAAGTGGCTCCGAG
Seq C2 exon
AGCCACACTTTGTCCAGGCCTTGGAGCATGGAGACCATGTCTACTTCTTCTTCCGCGAGGTCTCTGTGGAGGATGCTCGGCTGGGGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000143434_MULTIEX2-3/3=2-C2
Average complexity
C1*
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.028 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(25.0=100),PF0140314=Sema=PU(1.1=9.7)
A:
PF0140314=Sema=FE(9.5=100)
C2:
PF0140314=Sema=PD(0.1=0.0),PF0140314=Sema=FE(10.9=100)
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
ATAACTTCGCTGCAGCAGGAG
R:
CTCCCCAGCCGAGCATCC
Band lengths:
179-299
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)